Your message dated Mon, 28 Apr 2025 21:34:47 +0000
with message-id <e1u9w7j-004rsc...@fasolo.debian.org>
and subject line Bug#1103227: fixed in r-bioc-grohmm 1.40.3-3
has caused the Debian Bug report #1103227,
regarding r-bioc-grohmm: FTBFS: DecayAlgorithm.c:94:15: error: expected
identifier or '(' before 'false'
to be marked as done.This means that you claim that the problem has been dealt with. If this is not the case it is now your responsibility to reopen the Bug report if necessary, and/or fix the problem forthwith. (NB: If you are a system administrator and have no idea what this message is talking about, this may indicate a serious mail system misconfiguration somewhere. Please contact ow...@bugs.debian.org immediately.) -- 1103227: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1103227 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
--- Begin Message ---Package: src:r-bioc-grohmm Version: 1.40.3-2 Severity: serious Tags: ftbfs trixie sid Dear maintainer: During a rebuild of all packages in unstable, your package failed to build: -------------------------------------------------------------------------------- [...] debian/rules clean dh clean --buildsystem R dh_auto_clean -O--buildsystem=R dh_autoreconf_clean -O--buildsystem=R dh_clean -O--buildsystem=R debian/rules binary dh binary --buildsystem R dh_update_autotools_config -O--buildsystem=R dh_autoreconf -O--buildsystem=R dh_auto_configure -O--buildsystem=R dh_auto_build -O--buildsystem=R dh_auto_test -O--buildsystem=R create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=R dh_prep -O--buildsystem=R dh_auto_install --destdir=debian/r-bioc-grohmm/ -O--buildsystem=R I: R Package: groHMM Version: 1.40.3 I: Building using R version 4.5.0-1 I: R API version: r-api-4.0 I: Using built-time from d/changelog: Mon, 13 Jan 2025 21:17:46 +0100 mkdir -p /<<PKGBUILDDIR>>/debian/r-bioc-grohmm/usr/lib/R/site-library R CMD INSTALL -l /<<PKGBUILDDIR>>/debian/r-bioc-grohmm/usr/lib/R/site-library --clean . "--built-timestamp='Mon, 13 Jan 2025 21:17:46 +0100'" * installing *source* package âgroHMMâ ... ** this is package âgroHMMâ version â1.40.3â ** package âgroHMMâ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: âgcc (Debian 14.2.0-19) 14.2.0â make[1]: Entering directory '/<<PKGBUILDDIR>>/src' gcc -std=gnu23 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/r-base-4.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -c AnnotateProbes.c -o AnnotateProbes.o gcc -std=gnu23 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/r-base-4.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -c DecayAlgorithm.c -o DecayAlgorithm.o DecayAlgorithm.c: In function âgetTranscriptPositionsâ: DecayAlgorithm.c:94:15: error: expected identifier or â(â before âfalseâ 94 | const int false= 0; | ^~~~~ make[1]: *** [/usr/lib/R/etc/Makeconf:202: DecayAlgorithm.o] Error 1 make[1]: Leaving directory '/<<PKGBUILDDIR>>/src' make[1]: Entering directory '/<<PKGBUILDDIR>>/src' make[1]: Leaving directory '/<<PKGBUILDDIR>>/src' ERROR: compilation failed for package âgroHMMâ * removing â/<<PKGBUILDDIR>>/debian/r-bioc-grohmm/usr/lib/R/site-library/groHMMâ dh_auto_install: error: R CMD INSTALL -l /<<PKGBUILDDIR>>/debian/r-bioc-grohmm/usr/lib/R/site-library --clean . "--built-timestamp='Mon, 13 Jan 2025 21:17:46 +0100'" returned exit code 1 make: *** [debian/rules:4: binary] Error 25 dpkg-buildpackage: error: debian/rules binary subprocess returned exit status 2 -------------------------------------------------------------------------------- The above is just how the build ends and not necessarily the most relevant part. If required, the full build log is available here: https://people.debian.org/~sanvila/build-logs/202504/ About the archive rebuild: The build was made on virtual machines from AWS, using sbuild and a reduced chroot with only build-essential packages. If you could not reproduce the bug please contact me privately, as I am willing to provide ssh access to a virtual machine where the bug is fully reproducible. If this is really a bug in one of the build-depends, please use reassign and add an affects on src:r-bioc-grohmm, so that this is still visible in the BTS web page for this package. Thanks.
--- End Message ---
--- Begin Message ---Source: r-bioc-grohmm Source-Version: 1.40.3-3 Done: Rebecca N. Palmer <rebecca_pal...@zoho.com> We believe that the bug you reported is fixed in the latest version of r-bioc-grohmm, which is due to be installed in the Debian FTP archive. A summary of the changes between this version and the previous one is attached. Thank you for reporting the bug, which will now be closed. If you have further comments please address them to 1103...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Rebecca N. Palmer <rebecca_pal...@zoho.com> (supplier of updated r-bioc-grohmm package) (This message was generated automatically at their request; if you believe that there is a problem with it please contact the archive administrators by mailing ftpmas...@ftp-master.debian.org) -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 1.8 Date: Mon, 28 Apr 2025 16:28:06 +0100 Source: r-bioc-grohmm Architecture: source Version: 1.40.3-3 Distribution: unstable Urgency: medium Maintainer: Debian R Packages Maintainers <r-pkg-t...@alioth-lists.debian.net> Changed-By: Rebecca N. Palmer <rebecca_pal...@zoho.com> Closes: 1103227 Changes: r-bioc-grohmm (1.40.3-3) unstable; urgency=medium . * Team upload. * Be compatible with R 4.5, thanks to Li Wenjun. (Closes: #1103227) Checksums-Sha1: 9ff9f6f1c40b24a47704eca2dc452c9d61429ef3 2223 r-bioc-grohmm_1.40.3-3.dsc e8265350b5166ad40d37ed1a5555408f9374707b 4556 r-bioc-grohmm_1.40.3-3.debian.tar.xz 61b8e57cd7d7ea888ac8984d1351b790b7c8904b 5929 r-bioc-grohmm_1.40.3-3_source.buildinfo Checksums-Sha256: a41f096ba682158637b9f376a3297498b26d6c1d2c33a41991c91f4de9c29b2e 2223 r-bioc-grohmm_1.40.3-3.dsc 34a18e569eff6d3cbfdf3f298cc2040331a045f0d9dba6b22f258505502fe549 4556 r-bioc-grohmm_1.40.3-3.debian.tar.xz 386d15085c9b5373463e37aa5ebce5d3b0394dc15f5f5ba20456762d545787c4 5929 r-bioc-grohmm_1.40.3-3_source.buildinfo Files: 5efadba59af5dc6a657d0ef69bc5f137 2223 gnu-r optional r-bioc-grohmm_1.40.3-3.dsc 394326ea1229cc2f2f6c99632fd0bbc1 4556 gnu-r optional r-bioc-grohmm_1.40.3-3.debian.tar.xz b1d2cdffec1b10bd0d68f9ec1843d1a0 5929 gnu-r optional r-bioc-grohmm_1.40.3-3_source.buildinfo -----BEGIN PGP SIGNATURE----- iQJMBAEBCgA2FiEEZ8sxEAXE7b4yF1MI3uUNDVZ+omYFAmgP5nwYHHJlYmVjY2Ff cGFsbWVyQHpvaG8uY29tAAoJEN7lDQ1WfqJmMRwP/0armI5NHti8SOYPMUbrlods FfBFLtkZbjsbo20zFfUMUHRB+rX1hdm5wy8OPjP8Bf0e/ByNnxi98ag0E7vjxZ8t bcPEhvW78+0IoP0i4UxF6hI05QVardsJZPN1x9HhVHZgnWjKPB8pftqPiYg4efTY yBIRskUwfzrokcOliCZEfm/QQuTu6I4hrwF02UejZweyx+4+0yKU/2ibL/pkY9+r 4HTH8zLiLinlYYzjklreLW7asAxwBgSkI5jOnXq2uIO76QdCA/HYvGiBZRqMOE1g 8wn7Vns66GfbfGNqwHttuweg3riDoCZ4rcG6yLVjeN2INLQLjZyWAdEP/MT7ja26 eP+VASMkAPSM3fK5Fc+9+WHCiJsCV4PO84p9d+4AtKcefsxW+eblwBn3hqdAWXed mTDcmdFNq2G9YbkoXixJ8rueFHvXQBEgE9qz1hOZBQg5ULcvrfYMuOTrODdqnJib Kj2zkTfi5DCX5AkCTlJSyUC0HTcoBN8/g/68PO3ei/HbSKqsoWJbzFvxUNdlTaOQ 9ImwmEctao3YHNeFW6pQdSdVNHetvZPMkDYfvo6AaptGp/8tYFwiuRV5P2c1qj4/ jci/x6gwN2J2k7iiadyKsx0EQVlstnddx8Bn6F4OKya/WcilUeBCITMBNjC3spX1 HBVX/2LZjkaT18DpnUON =hUAc -----END PGP SIGNATURE-----
pgpekWpdZxGux.pgp
Description: PGP signature
--- End Message ---
